Publikationen
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de la Cuesta Zuluaga, J.; Huus, K.; Youngblut, N.; Escobar, J.; Ley, R.: Obesity is the main driver of altered gut microbiome functions in the metabolically unhealthy. Gut Microbes 15 (2), 2246634 (2023)

Marsh, J.; Kirk, C.; Ley, R.: Toward Microbiome Engineering: Expanding the Repertoire of Genetically Tractable Members of the Human Gut Microbiome. Annual Review of Microbiology 77, S. 427 - 449 (2023)

Clasen, S.: The sound of silence. Science 381 (6653), S. 37 - 38 (2023)

Bretin, A.; Zou, J.; Yeoh, V.; Ngo, V.; Winer, S.; Winer, D.; Reddivari, L.; Pellizzon, M.; Walters, W.; Patterson, A. et al.; Ley, R.; Chassaing, B.; Vijay-Kumar, M.; Gewirtz, A.: Psyllium Fiber Protects Against Colitis Via Activation of Bile Acid Sensor Farnesoid X Receptor. Cellular and Molecular Gastroenterology and Hepatology 15 (6), S. 1421 - 1442 (2023)

Mineeva, O.; Danciu, D.; Schölkopf, B.; Ley, R.; Rätsch, G.; Youngblut, N.: ResMiCo: increasing the quality of metagenome-assembled genomes with deep learning. PLoS Computational Biology 19 (5), e1011001 (2023)

Pinto, Y.; Frishman, S.; Turjeman, S.; Eshel, A.; Nuriel-Ohayon, M.; Shrossel, O.; Ziv, O.; Walters, W.; Parsonnet, J.; Ley, C. et al.; Johnson, E.; Kumar, K.; Schweitzer, R.; Khatib, S.; Magzal, F.; Muller, E.; Tamir, S.; Tenenbaum-Gavish, K.; Rautava, S.; Salminen, S.; Isolauri, E.; Yariv, O.; Peled, Y.; Poran, E.; Chen, R.; Hod, M.; Borenstein, E.; Ley, R.; Schwartz, B.; Louzoun, Y.; Hadar, E.; Koren, O.: Gestational diabetes is driven by microbiota-induced inflammation months before diagnosis. Gut 72 (5), gutjnl-2022-328406, S. 918 - 928 (2023)

Kleiner, M.; Kouris, A.; Violette, M.; D’Angelo, G.; Liu, Y.; Korenek, A.; Tolić, N.; Sachsenberg, T.; McCalder, J.; Lipton, M. et al.; Strous, M.: Ultra-sensitive isotope probing to quantify activity and substrate assimilation in microbiomes. Microbiome 11 (1), 24 (2023)

Walters, W.; Granados, A.; Ley, C.; Federman, S.; Stryke, D.; Santos, Y.; Haggerty, T.; Sotomayor-Gonzalez, A.; Servellita, V.; Ley, R. et al.; Parsonnet, J.; Chiu, C.: Longitudinal comparison of the developing gut virome in infants and their mothers. Cell Host & Microbe 31 (2), S. 187 - 198 (2023)

Clasen, S.; Bell, M.; Lee, D.-H.; Henseler, Z.; de la Cuesta-Zuluaga, J.; Parys, K.; Zou, J.; Wang, Y.; Altmannova, V.; Youngblut, N. et al.; Weir, J.; Gewirtz, A.; Belkhadir, Y.; Ley, R.: Silent recognition of flagellins from human gut commensal bacteria by Toll-like receptor 5. Science Immunology 8 (79), eabq7001 (2023)

Kennedy, K.; de Goffau, M.; Perez-Muñoz, M.; Arrieta, M.-C.; Bäckhed, F.; Bork, P.; Braun, T.; Bushman, F.; Dore, J.; de Vos, W. et al.; Earl, A.; Eisen, J.; Elovitz, M.; Ganal-Vonarburg, S.; Gänzle, M.; Garrett, W.; Hall, L.; Hornef, M.; Huttenhower, C.; Konnikova, L.; Lebeer, S.; Macpherson, A.; Massey, R.; McHardy, A.; Koren, O.; Lawley, T.; Ley, R.; O'Mahony, L.; O'Toole, P.; Pamer, E.; Parkhill, J.; Raes, J.; Rattei, T.; Salonen, A.; Segal, E.; Segata, N.; Shanahan, F.; Sloboda, D.; Smith, D.; Sokol, H.; Spector, T.; Surette, M.; Tannock, G.; Walker, A.; Yassour, M.; Walter, J.: Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature 613 (7945), S. 639 - 649 (2023)

Ruaud, A.; Pfister, N.; Ley, R.; Youngblut, N.: Interpreting tree ensemble machine learning models with endoR. PLoS Computational Biology 18 (12), e1010714 (2022)

Barnett, S.; Youngblut, N.; Buckley, D.: Bacterial community dynamics explain carbon mineralization and assimilation in soils of different land-use history. Environmental Microbiology 24 (11), S. 5230 - 5247 (2022)

Wilhelm, R.; Barnett, S.; Swenson, T.; Youngblut, N.; Koechli, C.; Bowen, P.; Northen, T.; Buckley, D.: Tracing carbon metabolism with stable isotope metabolomics reveals the legacy of diverse carbon sources in soil. Applied and Environmental Microbiology 88 (22), e0083922 (2022)

Welter, D.; Ruaud, A.; Henseler, Z.; De Jong, H.; van Coeverden de Groot, P.; Michaux, J.; Gormezano, L.; Waters, J.; Youngblut, N.; Ley, R.: Free-living psychrophilic bacteria of the genus Psychrobacter are descendants of pathobionts. mSystems (angenommen)

Suzuki, T.; Fitzstevens, J.; Schmidt, V.; Enav, H.; Huus, K.; Mbong Ngwese, M.; Grießhammer, A.; Pfleiderer, A.; Adegbite, B.; Zinsou, J. et al.; Esen, M.; Velavan, T.; Adegnika, A.; Song, L.; Spector, T.; Muehlbauer, A.; Marchi, N.; Kang, H.; Maier, L.; Blekhman, R.; Ségurel, L.; Ko, G.; Youngblut, N.; Kremsner, P.; Ley, R.: Codiversification of gut microbiota with humans. Science 377 (6612), S. 1328 - 1332 (2022)

Youngblut, N.; de la Cuesta-Zuluaga, J.; Ley, R.: Incorporating genome-based phylogeny and functional similarity into diversity assessments helps to resolve a global collection of human gut metagenomes. Environmental Microbiology 24 (9), S. 3966 - 3984 (2022)

Heaver, S.; He, H.; Tang, P.; Baslé, A.; Barone, C.; Vu, D.; Waters, J.; Marles-Wright, J.; Johnson, E.; Campopiano, D. et al.; Ley, R.: Characterization of inositol lipid metabolism in gut-associated Bacteroidetes. Nature Microbiology 7 (7), S. 986 - 1000 (2022)

Andrade-Martínez, J.; Camelo Valera, L.; Chica Cárdenas , L.; Forero-Junco, L.; López-Leal, G.; Moreno-Gallego, J.; Rangel-Pineros, G.; Reyes, A.: Computational Tools for the Analysis of Uncultivated Phage Genomes. Microbiology and Molecular Biology Reviews 86 (2), e0000421 (2022)

Enav, H.; Bäckhed, F.; Ley, R.: The developing infant gut microbiome: A strain-level view. Cell Host & Microbe 30 (5), S. 627 - 638 (2022)

Laloum, E.; Cattan-Tsaushu, E.; Schwartz, D.; Shaalan, H.; Enav, H.; Kolan, D.; Avrani, S.: Isolation and characterization of a novel Lambda-like phage infecting the bloom-forming cyanobacteria Cylindrospermopsis raciborskii. Environmental Microbiology 24 (5), S. 2435 - 2448 (2022)